Gene Annotation

Shows the current gene functional description, GO annotations, and KEGG cross-references. Functional annotations retain the source reference; direct Arabidopsis/rice sequence hits are shown separately.

Examples TkA01G624900 LXL04_000258 Reference examples LXL04_039733 TkAUNG001940

Search Results

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Gene ID	`LXL04_027230`
Query reference	OH1004
Location	Chr06:11351874-11357170 (+)
Description	Similar to CPL1: RNA polymerase II C-terminal domain phosphatase-like 1 (Arabidopsis thaliana OX%3D3702)
Annotation source assembly	GCA_047496595.1_OSU_TarKok_2.0

Functional annotation source: OH1004 · LXL04_027230 · GCA_047496595.1_OSU_TarKok_2.0.

This query returns 24 GO annotations and 2 KEGG gene cross-references from the OH1004 annotation record. The download is scoped to this query; these records do not establish KEGG pathway membership.

Arabidopsis / Rice Reference Genes and Papers

Papers describe Arabidopsis or rice reference genes. Functional links to rubber dandelion are based on protein alignments from the queried assembly.

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g21670`	Processively dephosphorylates 'Ser-5' but not 'Ser-2' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit (RPB1).	Fusion genetic analysis of jasmonate-signalling mutants in Arabidopsis.2002 · DOI: 10.1046/j.0960-7412.2001.01241.x C-terminal domain phosphatase-like family members (AtCPLs) differentially regulate Arabidopsis thaliana abiotic stress signaling, growth, and development.2002 · DOI: 10.1073/pnas.112276199 Repression of stress-responsive genes by FIERY2, a novel transcriptional regulator in Arabidopsis.2002 · DOI: 10.1073/pnas.162111599 Arabidopsis C-terminal domain phosphatase-like 1 and 2 are essential Ser-5-specific C-terminal domain phosphatases.2004 · DOI: 10.1073/pnas.0403174101 CTD phosphatases in the attenuation of wound-induced transcription of jasmonic acid biosynthetic genes in Arabidopsis.2009 · DOI: 10.1111/j.1365-313x.2008.03663.x The arabidopsis RNA binding protein with K homology motifs, SHINY1, interacts with the C-terminal domain phosphatase-like 1 (CPL1) to repress stress-inducible gene expression.2013 · DOI: 10.1371/journal.pgen.1003625 The RNA-binding protein HOS5 and serine/arginine-rich proteins RS40 and RS41 participate in miRNA biogenesis in Arabidopsis.2015 · DOI: 10.1093/nar/gkv751 The RNA Polymerase II C-Terminal Domain Phosphatase-Like Protein FIERY2/CPL1 Interacts with eIF4AIII and Is Essential for Nonsense-Mediated mRNA Decay in Arabidopsis.2016 · DOI: 10.1105/tpc.15.00771
`At5g01270`	Processively dephosphorylates 'Ser-5' but not 'Ser-2' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit (RPB1).	Arabidopsis C-terminal domain phosphatase-like 1 and 2 are essential Ser-5-specific C-terminal domain phosphatases.2004 · DOI: 10.1073/pnas.0403174101 The Arabidopsis thaliana carboxyl-terminal domain phosphatase-like 2 regulates plant growth, stress and auxin responses.2008 · DOI: 10.1007/s11103-008-9348-y A protein complex regulates RNA processing of intronic heterochromatin-containing genes in Arabidopsis .2017 · DOI: 10.1073/pnas.1710683114 Coupling of H3K27me3 recognition with transcriptional repression through the BAH-PHD-CPL2 complex in Arabidopsis.2020 · DOI: 10.1038/s41467-020-20089-0

Rice

No hit for this species in the current source table.

GO / KEGG

These GO/KEGG records retain the OH1004 annotation source and original transfer evidence/coverage. Their source-species scope differs from the direct Arabidopsis/rice alignment table.

Type	ID	Name	Namespace	Evidence	Source
GO	GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006351	DNA-templated transcription	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0006970	response to osmotic stress	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009611	response to wounding	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009651	response to salt stress	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009733	response to auxin	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009734	auxin-activated signaling pathway	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0009738	abscisic acid-activated signaling pathway	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0010468	regulation of gene expression	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0; UniProt GO evidence=IMP:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0034244	negative regulation of transcription elongation by RNA polymerase II	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0045814	negative regulation of gene expression, epigenetic	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0045892	negative regulation of DNA-templated transcription	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0048589	developmental growth	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0; UniProt GO evidence=IMP:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:2000028	regulation of photoperiodism, flowering	Biological Process	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0; UniProt GO evidence=IMP:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005634	nucleus	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0005737	cytoplasm	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0; UniProt GO evidence=IDA:UniProtKB	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0016607	nuclear speck	Cellular Component	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-SubCell	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0003677	DNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IPI:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0003723	RNA binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0004721	phosphoprotein phosphatase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0004722	protein serine/threonine phosphatase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IDA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0008420	RNA polymerase II CTD heptapeptide repeat phosphatase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IBA:GO_Central	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0016791	phosphatase activity	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IDA:TAIR	UniProtKB/Swiss-Prot DAT 2026 current_release
GO	GO:0046872	metal ion binding	Molecular Function	Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0; UniProt GO evidence=IEA:UniProtKB-KW	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	ath:AT4G21670	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=1; identity=53.5; coverage=105.82; evalue=0.0	UniProtKB/Swiss-Prot DAT 2026 current_release
KEGG	ath:AT5G01270	KEGG gene cross-reference from reviewed UniProt hit; pathway name pending		Swiss-Prot reviewed homolog transfer; hit_rank=2; identity=46.304; coverage=81.587; evalue=0.0	UniProtKB/Swiss-Prot DAT 2026 current_release